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Data from: Three-phase succession of autochthonous lactic acid bacteria to reach a stable ecosystem within seven days of natural bamboo shoot fermentation as revealed by different molecular approaches

Wahengbam R, Ahmed G, Jeyaram K

Date Published: May 8, 2015

DOI: http://dx.doi.org/10.5061/dryad.cs4h8

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Title

Fig. S2 Neighbor-joining phylogenetic tree based on the nucleotide sequence of SSU rRNA gene showing the evolutionary relationships of the novel bacterial isolates

Table S3 Molecular grouping and identification of culturable bacteria isolated from the stage-wise collected samples of the indigenous fermentation of S. munroi meristem for production of soidon by ARDRA and rRNA sequencing

Table S3 Molecular grouping and identification of culturable yeasts from the stage-wise collected samples of the indigenous fermentation of S. munroi meristem for production of soidon by ARDRA and 26S rRNA D1/D2 region sequencing

Table S3 Molecular grouping and identification ofculturable yeasts isolated from the stage-wise collected samples of the indigenous fermentation of S. munroi meristem for production of soidon by ARDRA and ITS sequencing

Bishnupur district (24.616667 N, 93.75 E, 762 msl) of Manipur, North East India

AbstractMicrobial community structure and population dynamics during spontaneous bamboo shoot fermentation for production of ‘soidon’ (indigenous fermented food) in North-east India were studied using cultivation-dependent and cultivation-independent molecular approaches. Cultivation-dependent analyses (PCR-amplified ribosomal DNA restriction analysis and rRNA gene sequencing) and cultivation-independent analyses (PCR-DGGE, qPCR and Illumina amplicon sequencing) were conducted on the time series samples collected from three independent indigenous soidon fermentation batches. The current findings revealed three-phase succession of autochthonous lactic acid bacteria to attain a stable ecosystem within 7 days natural fermentation of bamboo shoots. Weissella spp. (Weissella cibaria, uncultured Weissella ghanensis) and Lactococcus lactis subsp. cremoris predominated the early phase (1–2 days) which was joined by Leuconostoc citreum during the mid-phase (3 days), while Lactobacillus brevis and Lactobacillus plantarum emerged and became dominant in the late phase (5–7 days) with concurrent disappearance of W. cibaria and L. lactis subsp. cremoris. Lactococcus lactis subsp. lactis and uncultured Lactobacillus acetotolerans were predominantly present throughout the fermentation with no visible dynamics. The above identified dominant bacterial species along with their dynamics can be effectively utilized for designing a starter culture for industrialization of soidon production. Our results showed that a more realistic view on the microbial ecology of soidon fermentation could be obtained by cultivation-dependent studies complemented with cultivation-independent molecular approaches. Moreover, the critical issues to be considered for reducing methodological biases while studying the microbial ecology of traditional food fermentation were also highlighted with this soidon fermentation model.